[2022-02-24 01:33:37,394] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-02-24 01:33:37,394] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-02-24 01:33:37,394] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-02-24 01:33:37,395] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-02-24 01:33:37,395] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-02-24 01:33:37,395] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H35CCBGXL/merged [2022-02-24 01:33:38,268] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-02-24 01:33:38,268] multiqc [INFO ] This is MultiQC v1.9 [2022-02-24 01:33:38,268] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H35CCBGXL/merged [2022-02-24 01:33:38,268] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H35CCBGXL/merged [2022-02-24 01:33:38,268] multiqc [INFO ] Template : default [2022-02-24 01:33:38,268] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-02-24 01:33:38,268] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H35CCBGXL/merged [2022-02-24 01:33:38,269] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, somalier, methylQA, mosdepth, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rockhopper, rsem, rseqc, busco, goleft_indexcov, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, mirtop, homer, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dragen, dedup, damageprofiler, biobambam2, mtnucratio, picard, prokka, samblaster, samtools, sexdeterrmine, bamtools, jellyfish, vcftools, longranger, stacks, varscan2, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, snpsplit, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, kaiju, kraken, malt, trimmomatic, sickle, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, pycoqc, minionqc, multivcfanalyzer, clusterflow, bcl2fastq, interop, ivar, flash, seqyclean [2022-02-24 01:33:38,269] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-15214616/tmp6i7ue9lf [2022-02-24 01:33:38,387] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB2_24_fastqc.html [2022-02-24 01:33:38,390] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded 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pattern filesize limit: H35CCBGXL_n01_FebB2_5_fastqc.html [2022-02-24 01:33:41,644] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_5_fastqc.html [2022-02-24 01:33:41,647] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_5_fastqc.html [2022-02-24 01:33:41,695] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB2_18_fastqc.html [2022-02-24 01:33:41,698] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB2_18_fastqc.html [2022-02-24 01:33:41,746] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_1_fastqc.html [2022-02-24 01:33:41,748] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_1_fastqc.html [2022-02-24 01:33:41,795] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_9_fastqc.html [2022-02-24 01:33:41,797] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_9_fastqc.html [2022-02-24 01:33:41,845] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_3_fastqc.html [2022-02-24 01:33:41,847] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_3_fastqc.html [2022-02-24 01:33:41,894] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_17_fastqc.html [2022-02-24 01:33:41,896] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_17_fastqc.html [2022-02-24 01:33:41,944] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_8_fastqc.html [2022-02-24 01:33:41,947] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB4_8_fastqc.html [2022-02-24 01:33:41,996] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_23_fastqc.html [2022-02-24 01:33:41,998] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_23_fastqc.html [2022-02-24 01:33:42,048] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_15_fastqc.html [2022-02-24 01:33:42,051] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H35CCBGXL_n01_FebB3_15_fastqc.html [2022-02-24 01:33:42,675] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-02-24 01:33:42,676] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-02-24 01:33:42,693] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2022-02-24 01:33:42,695] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-02-24 01:33:42,727] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 70 samples (table) [2022-02-24 01:33:42,733] multiqc [DEBUG ] No samples found: conpair [2022-02-24 01:33:42,738] multiqc [DEBUG ] No samples found: peddy [2022-02-24 01:33:42,744] multiqc [DEBUG ] No samples found: somalier [2022-02-24 01:33:42,749] multiqc [DEBUG ] No samples found: methylQA [2022-02-24 01:33:42,759] multiqc [DEBUG ] No samples found: mosdepth [2022-02-24 01:33:42,765] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-02-24 01:33:42,768] multiqc [DEBUG ] No samples found: qualimap [2022-02-24 01:33:42,774] multiqc [DEBUG ] No samples found: preseq [2022-02-24 01:33:42,780] multiqc [DEBUG ] No samples found: quast [2022-02-24 01:33:42,785] multiqc [DEBUG ] No samples found: qorts [2022-02-24 01:33:42,790] multiqc [DEBUG ] No samples found: rna_seqc [2022-02-24 01:33:42,796] multiqc [DEBUG ] No samples found: rockhopper [2022-02-24 01:33:42,801] multiqc [DEBUG ] No samples found: rsem [2022-02-24 01:33:42,814] multiqc [DEBUG ] No samples found: rseqc [2022-02-24 01:33:42,819] multiqc [DEBUG ] No samples found: busco [2022-02-24 01:33:42,824] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-02-24 01:33:42,829] multiqc [DEBUG ] No samples found: disambiguate [2022-02-24 01:33:42,834] multiqc [DEBUG ] No samples found: supernova [2022-02-24 01:33:42,849] multiqc [DEBUG ] No samples found: deeptools [2022-02-24 01:33:42,854] multiqc [DEBUG ] No samples found: sargasso [2022-02-24 01:33:42,860] multiqc [DEBUG ] No samples found: verifybamid [2022-02-24 01:33:42,866] multiqc [DEBUG ] No samples found: mirtrace [2022-02-24 01:33:42,872] multiqc [DEBUG ] No samples found: happy [2022-02-24 01:33:42,877] multiqc [DEBUG ] No samples found: mirtop [2022-02-24 01:33:42,884] multiqc [DEBUG ] No samples found: homer [2022-02-24 01:33:42,889] multiqc [DEBUG ] No samples found: macs2 [2022-02-24 01:33:42,894] multiqc [DEBUG ] No samples found: theta2 [2022-02-24 01:33:42,899] multiqc [DEBUG ] No samples found: snpeff [2022-02-24 01:33:42,906] multiqc [DEBUG ] No samples found: gatk [2022-02-24 01:33:42,911] multiqc [DEBUG ] No samples found: htseq [2022-02-24 01:33:42,917] multiqc [DEBUG ] No samples found: bcftools [2022-02-24 01:33:42,923] multiqc [DEBUG ] No samples found: featureCounts [2022-02-24 01:33:42,929] multiqc [DEBUG ] No samples found: fgbio [2022-02-24 01:33:42,945] multiqc [DEBUG ] No samples found: dragen [2022-02-24 01:33:42,950] multiqc [DEBUG ] No samples found: dedup [2022-02-24 01:33:42,955] multiqc [DEBUG ] No samples found: damageprofiler [2022-02-24 01:33:42,980] multiqc [DEBUG ] No samples found: biobambam2 [2022-02-24 01:33:42,985] multiqc [DEBUG ] No samples found: mtnucratio [2022-02-24 01:33:42,987] multiqc [DEBUG ] No samples found: picard [2022-02-24 01:33:42,992] multiqc [DEBUG ] No samples found: prokka [2022-02-24 01:33:42,997] multiqc [DEBUG ] No samples found: samblaster [2022-02-24 01:33:43,006] multiqc [DEBUG ] No samples found: samtools [2022-02-24 01:33:43,011] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-02-24 01:33:43,017] multiqc [DEBUG ] No samples found: bamtools [2022-02-24 01:33:43,022] multiqc [DEBUG ] No samples found: jellyfish [2022-02-24 01:33:43,030] multiqc [DEBUG ] No samples found: vcftools [2022-02-24 01:33:43,035] multiqc [DEBUG ] No samples found: longranger [2022-02-24 01:33:43,040] multiqc [DEBUG ] No samples found: stacks [2022-02-24 01:33:43,044] multiqc [DEBUG ] No samples found: varscan2 [2022-02-24 01:33:43,061] multiqc [DEBUG ] No samples found: bbmap [2022-02-24 01:33:43,066] multiqc [DEBUG ] No samples found: bismark [2022-02-24 01:33:43,071] multiqc [DEBUG ] No samples found: biscuit [2022-02-24 01:33:43,076] multiqc [DEBUG ] No samples found: hicexplorer [2022-02-24 01:33:43,081] multiqc [DEBUG ] No samples found: hicup [2022-02-24 01:33:43,086] multiqc [DEBUG ] No samples found: hicpro [2022-02-24 01:33:43,091] multiqc [DEBUG ] No samples found: salmon [2022-02-24 01:33:43,096] multiqc [DEBUG ] No samples found: kallisto [2022-02-24 01:33:43,101] multiqc [DEBUG ] No samples found: slamdunk [2022-02-24 01:33:43,106] multiqc [DEBUG ] No samples found: star [2022-02-24 01:33:43,111] multiqc [DEBUG ] No samples found: hisat2 [2022-02-24 01:33:43,116] multiqc [DEBUG ] No samples found: tophat [2022-02-24 01:33:43,121] multiqc [DEBUG ] No samples found: bowtie2 [2022-02-24 01:33:43,126] multiqc [DEBUG ] No samples found: bowtie1 [2022-02-24 01:33:43,132] multiqc [DEBUG ] No samples found: snpsplit [2022-02-24 01:33:43,136] multiqc [DEBUG ] No samples found: kat [2022-02-24 01:33:43,141] multiqc [DEBUG ] No samples found: leehom [2022-02-24 01:33:43,146] multiqc [DEBUG ] No samples found: adapterRemoval [2022-02-24 01:33:43,151] multiqc [DEBUG ] No samples found: clipandmerge [2022-02-24 01:33:43,156] multiqc [DEBUG ] No samples found: cutadapt [2022-02-24 01:33:43,161] multiqc [DEBUG ] No samples found: flexbar [2022-02-24 01:33:43,166] multiqc [DEBUG ] No samples found: kaiju [2022-02-24 01:33:43,171] multiqc [DEBUG ] No samples found: kraken [2022-02-24 01:33:43,176] multiqc [DEBUG ] No samples found: malt [2022-02-24 01:33:43,181] multiqc [DEBUG ] No samples found: trimmomatic [2022-02-24 01:33:43,186] multiqc [DEBUG ] No samples found: sickle [2022-02-24 01:33:43,191] multiqc [DEBUG ] No samples found: skewer [2022-02-24 01:33:43,196] multiqc [DEBUG ] No samples found: sortmerna [2022-02-24 01:33:43,201] multiqc [DEBUG ] No samples found: biobloomtools [2022-02-24 01:33:43,206] multiqc [DEBUG ] No samples found: fastq_screen [2022-02-24 01:33:43,211] multiqc [DEBUG ] No samples found: afterqc [2022-02-24 01:33:43,216] multiqc [DEBUG ] No samples found: fastp [2022-02-24 01:33:48,123] multiqc.modules.fastqc.fastqc [INFO ] Found 70 reports [2022-02-24 01:33:49,518] multiqc [DEBUG ] No samples found: pycoqc [2022-02-24 01:33:49,524] multiqc [DEBUG ] No samples found: minionqc [2022-02-24 01:33:49,529] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-02-24 01:33:49,534] multiqc [DEBUG ] No samples found: clusterflow [2022-02-24 01:33:49,539] multiqc [DEBUG ] No samples found: bcl2fastq [2022-02-24 01:33:49,545] multiqc [DEBUG ] No samples found: interop [2022-02-24 01:33:49,553] multiqc [DEBUG ] No samples found: ivar [2022-02-24 01:33:49,558] multiqc [DEBUG ] No samples found: flash [2022-02-24 01:33:49,563] multiqc [DEBUG ] No samples found: seqyclean [2022-02-24 01:33:49,563] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2022-02-24 01:33:49,563] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2022-02-24 01:33:49,564] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-02-24 01:33:49,564] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-02-24 01:33:49,645] multiqc [INFO ] Compressing plot data [2022-02-24 01:33:50,895] multiqc [INFO ] Report : multiqc_report.html [2022-02-24 01:33:50,895] multiqc [INFO ] Data : multiqc_data [2022-02-24 01:33:50,895] multiqc [DEBUG ] Moving data file from '/state/partition1/job-15214616/tmp6i7ue9lf/multiqc_data' to '/scratch/gencore/logs/html/H35CCBGXL/merged/multiqc_data' [2022-02-24 01:33:51,026] multiqc [INFO ] MultiQC complete